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mmu_ciAtg2b_1339
Basic information of circular RNA
PanCircBase ID:
mmu_ciAtg2b_1339
mm39_Chr. Position ID:
chr12|105613232|105614571|-
Gene name:
Atg2b
Transcript:
ENSMUST00000041055.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
21
Exon/intron offsets:
0
Genomic length:
1339
Exon/intron sizes in nt:
1339
Flanking exon/introns:
chr12:105613211-105614571
Splice length:
1339
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGGAATTGTGCATCTTCCTCTCCTCTGTTTGGCGAGTGAATTTCCTATCTGTTAAGGACAGTTTTGAGAATACAATGTTGATGTAAGTTGTATTCTGTTGGGAGTTCTGGTTTTGTTGTCAAAATCATACTTATAGATTAAAATTTTTTTGTTTTGAGACAAGGTCTTACTGTATAGCCAACACTGGTTCTTAACTTGAGATTCTCCTGCCTCAGCCTCCCAAGTTCTAGGACTGTAAGTACACACTACCTCACATGACTAAAACTTAGAAATTTTGAGTTGTTGCCTGAATTACTCTGTGAATAGGCACAAAGAAATGAAAATCTTGTTTTCCTAGTATTTCAGAATCTTAGTTTATTTTTGTTTGTTTGTTTTCTGAGTTTTTGCCCTCAGTTTTACCAACAATCACAAAGAAGTAGGTCGTTGCTGCCATGCTGGCCTTTGGCCCTATGCCACCAGAACCATGCTGGGTTCTGTGGGGATCTTTGCAAGCACAACCACCAGTAGAGTAATTGATGGTGTGAGGCACGAAGAAAGTCTAGTTCAACACACATCAGTAGCCAGTGTGGTTCAAACTGCAGAGTCTGACACTGGGCAGTTTATTTGAGGCATATTTCAGTACAACATAATTTGGAACAGTCTCCTGCTATAACAACCCTGTGTGCAGTGAAACTCTTCTTAAAGTGCATGTCATTTCTTCCATGGAGATGGCTTGTATAGATAGACCATCTTATGCAGATGGTGCAGAATCCCCTACCTCCAGTCCTGTTTGTAAGAGTCTGGGGAACCAGGTATGGCCCTAAGGAGAGCATAGGAGTCACCAGACCATGAACTGACTCCATTTCCAGCCTCCTGGGCAGAGAACAGGTTATATATCTCTTCCTTTGAAGCGACAACCCTGTATATTAACATTCCTGGCTTATTAGTGGTTGTCTGTGAGCACTAGGACCTCTGTGCCCCCAACAAGGTTCAAAGAAATGCAGACTTGTCCTGGAAATTATGTTAGAAATGCTCTGAATCTCAGCTGTCTCTGATAGTGAGCTGCTGCAGTGGGTTTTCTGTGCCTGACTCTTGGGATGGGCACATCAGGGCGCAGGTGAGCCAGAGTCGGGCATGGATGACCCTGAATCTGTTGTCTGAAGAGTACACAAGACAAAAATGAGTCATGTCCAGAACTATACTCTCCCTAATGTCTCATTTAATGTATGTGAACATTGCCTGCTTCAGATTCTGAGTAGCTTGGGTAAAGCATACTCAGCCTGCACAGAGAGTTTCGTTGTGAGTTGTGAAAGTCCAAACAATTACGGAGCTAATTTCAAGTGATCATATTGGTGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGGTAAAGCATACTCAGCC
59.05
TCACTCGCCAAACAGAGGAG
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATACTCAGCCTGCACAG
60.11
ACAGATAGGAAATTCACTCGCCA
59.8
144
PCR template sequence:
AGCTTGGGTAAAGCATACTCAGCCTGCACAGAGAGTTTCGTTGTGAGTTGTGAAAGTCCAAACAATTACGGAGCTAATTTCAAGTGATCATATTGGTGTTGTAGGGAATTGTGCATCTTCCTCTCCTCTGTTTGGCGAGTGAATTTCCTATCTGTTAAGGACAGTTTTGAGAATACAATGTTGATGTAAGTTGTATTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(2), mmu-let-7e-5p(2), mmu-let-7b-5p(2), mmu-let-7c-5p(2), mmu-let-7d-5p(2), mmu-miR-1a-3p(1), mmu-miR-199a-5p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-495-3p(1), mmu-miR-434-3p(1), mmu-miR-182-5p(1), mmu-miR-98-5p(1), mmu-miR-342-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATATTGGTGTTGTAGGGAATTGTG
siRNA sets
CACAATTCCCTACAACACC, ATTCCCTACAACACCAATA, ACAATTCCCTACAACACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.780134759
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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